Clinical-Genomics / cg

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Create orderflow for microbial sequencing only

Vince-janv opened this issue · comments

Description

For human DNA samples customers can order different analysis workflow but they can also order sequencing only (FASTQ) where we just send them the FASTQ files.

This option does not exist for microbial samples where only a microSALT analyses are available and require input parameters which the customers might not have.

Acceptance Criteria

  • Customers can order sequencing for microbial samples without further analyses
  • The FASTQ files are automatically uploaded once sequencing is done

Notes

  • We need input on which input fields are needed for the lab when ordering @annagellerbring
  • Should ideally create on case per sample IMO

Implementation plan

  • ...

@Vince-janv does this issue need a technical refinement? If not we should add it to the trocadero "ready" column. Otherwise we have to add it to the refinement meeting.

@Vince-janv does this issue need a technical refinement? If not we should add it to the trocadero "ready" column. Otherwise we have to add it to the refinement meeting.

I will call relevant people to refinement and put it in the ready column when finished

Lab UDFs in new workflow: (in discussion with @FayKanellidou)

Keep:

  • Sample/Name
  • UDF/Control
  • UDF/Sequencing Analysis (Application tag)
  • UDF/customer
  • UDF/Sample Buffer
  • UDF/Volume
  • UDF/Priority
  • Container/Tube (Container Type)
  • Container/Name (Plate Name)
  • Sample/Well location (Well)
  • UDF/Comment

Remove:

  • UDF/Extraction method
  • UDF/Sample conc.
  • UDF/Quantity

FYI @annaengstrom @AnnaZetterlund